Variant report

Variant	rs10838613
Chromosome Location	chr11:46711778-46711779
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:46411875..46413800-chr11:46711035..46713879,2	K562	blood:
2	chr11:46708484..46715351-chr11:46720742..46723956,9	MCF-7	breast:
3	chr11:46707012..46709465-chr11:46710044..46712629,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000175213	Chromatin interaction
ENSG00000175220	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10769204	0.81[JPT][hapmap]
rs10838610	0.81[JPT][hapmap]
rs11038910	0.81[JPT][hapmap]
rs11038974	0.83[EUR][1000 genomes]
rs12574259	0.88[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.86[EUR][1000 genomes]
rs12574918	0.84[EUR][1000 genomes]
rs12577603	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs3136435	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs3136456	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs3802890	0.81[JPT][hapmap]
rs4319473	0.90[YRI][hapmap];0.85[EUR][1000 genomes]
rs4423142	0.80[EUR][1000 genomes]
rs55896955	0.81[EUR][1000 genomes]
rs56349329	0.84[EUR][1000 genomes]
rs57739486	0.84[EUR][1000 genomes]
rs57744667	0.84[EUR][1000 genomes]
rs61884292	0.81[EUR][1000 genomes]
rs61884295	0.84[EUR][1000 genomes]
rs61884301	0.84[EUR][1000 genomes]
rs6485686	0.81[JPT][hapmap]
rs7109698	0.80[EUR][1000 genomes]
rs7925678	0.81[JPT][hapmap]
rs7926389	0.89[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs7949282	0.81[JPT][hapmap]
rs7949371	0.81[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044225	chr11:46472580-46771102	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv541030	chr11:46472580-46771102	Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:46667200-46717000	Strong transcription	Brain Germinal Matrix	brain
2	chr11:46697200-46716000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr11:46697200-46721200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr11:46698000-46718600	Strong transcription	Rectal Mucosa Donor 29	rectum
5	chr11:46698400-46719400	Strong transcription	Sigmoid Colon	Sigmoid Colon
6	chr11:46699200-46715800	Strong transcription	Primary T helper cells fromperipheralblood	blood
7	chr11:46699200-46716400	Strong transcription	Primary T helper cells PMA-I stimulated	--
8	chr11:46699200-46717000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr11:46699200-46717200	Strong transcription	Liver	Liver
10	chr11:46699200-46719000	Strong transcription	Primary B cells from peripheral blood	blood
11	chr11:46699800-46715200	Strong transcription	Fetal Muscle Leg	muscle
12	chr11:46700400-46714000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr11:46700400-46718800	Strong transcription	Primary neutrophils fromperipheralblood	blood
14	chr11:46700600-46715400	Strong transcription	Primary T cells fromperipheralblood	blood
15	chr11:46701800-46715400	Weak transcription	K562	blood
16	chr11:46701800-46718600	Strong transcription	Fetal Intestine Large	intestine
17	chr11:46702000-46715800	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr11:46702600-46721400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr11:46702800-46716000	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr11:46702800-46716600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
21	chr11:46702800-46718400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr11:46703000-46715000	Weak transcription	HUES48 Cell Line	embryonic stem cell
23	chr11:46703000-46715200	Weak transcription	Hela-S3	cervix
24	chr11:46703000-46721400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr11:46703400-46716400	Weak transcription	Pancreatic Islets	Pancreatic Islet
26	chr11:46703600-46713400	Weak transcription	Ovary	ovary
27	chr11:46703800-46714000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr11:46704400-46716800	Weak transcription	Small Intestine	intestine
29	chr11:46706600-46718000	Strong transcription	Cortex derived primary cultured neurospheres	brain
30	chr11:46707000-46719000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr11:46707200-46716000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
32	chr11:46707200-46716600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
33	chr11:46707200-46719000	Strong transcription	Primary monocytes fromperipheralblood	blood
34	chr11:46707400-46716400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
35	chr11:46707400-46718400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr11:46707600-46711800	Strong transcription	Thymus	Thymus
37	chr11:46707600-46714200	Strong transcription	Primary T cells from cord blood	blood
38	chr11:46707600-46716600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
39	chr11:46707600-46718600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
40	chr11:46707600-46719000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr11:46707800-46719800	Strong transcription	Monocytes-CD14+_RO01746	blood
42	chr11:46708200-46717600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr11:46708400-46718200	Strong transcription	Duodenum Mucosa	Duodenum
44	chr11:46708800-46713400	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr11:46708800-46718800	Strong transcription	Lung	lung
46	chr11:46709000-46714600	Strong transcription	Placenta	Placenta
47	chr11:46709000-46717400	Weak transcription	Psoas Muscle	Psoas
48	chr11:46709200-46715400	Weak transcription	HUES6 Cell Line	embryonic stem cell
49	chr11:46709600-46715000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr11:46709600-46715200	Weak transcription	HUES64 Cell Line	embryonic stem cell

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